ArrayExpressHTS

ArrayExpress High Throughput Sequencing Processing Pipeline

Bioconductor version: Release (2.11)

RNA-Seq processing pipeline for public ArrayExpress experiments or local datasets

Author: Angela Goncalves, Andrew Tikhonov

Maintainer: Angela Goncalves <filimon at ebi.ac.uk>, Andrew Tikhonov <andrew at ebi.ac.uk>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("ArrayExpressHTS")

To cite this package in a publication, start R and enter:

    citation("ArrayExpressHTS")

PDF	R Script	ArrayExpressHTS: RNA-Seq Pipeline for transcription profiling experiments
PDF		Reference Manual
Text		NEWS

biocViews	HighThroughputSequencing, RNAseq, Sequencing, Software
Version	1.8.0
In Bioconductor since	BioC 2.8 (R-2.13)
License	Artistic License 2.0
Depends	sampling, Rsamtools(>= 1.3.32), snow
Imports	Biobase, Biostrings, DESeq, GenomicRanges, Hmisc, IRanges, R2HTML, RColorBrewer, Rsamtools, ShortRead, XML, biomaRt, edgeR, grDevices, graphics, methods, rJava, stats, svMisc, utils
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